Type |
Details |
Score |
Ontology Term Synonym |
Name: |
transcription start site |
Type: |
synonym |
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•
|
Ontology Term Synonym |
Name: |
major transcription start site |
Type: |
synonym |
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GO Term |
Description: |
Binding to a general transcription initiation factor, a protein that contributes to transcription start site selection and transcription initiation. |
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SO Term |
Description: |
The first base where RNA polymerase begins to synthesize the RNA transcript. |
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SO Term |
Description: |
The tanscription start site that is most frequently used for transcription of a gene. |
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Ontology Term Synonym |
Name: |
replication start site |
Type: |
synonym |
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SO Term |
Description: |
The first base to be translated into protein. |
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Ontology Term Synonym |
Name: |
transcriptional start site cluster |
Type: |
synonym |
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SO Term |
Description: |
A nucleotide site from which replication initiates. |
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Ontology Term Synonym |
Name: |
DNA-dependent transcriptional start site selection |
Type: |
synonym |
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Gene |
Length: |
965
|
Chromosome Location: |
Chr2: 17409370-17410334 |
Organism . Short Name: |
A. thaliana |
TAIR Computational Description: |
calcium-binding site protein;(source:Araport11) |
TAIR Curator Summary: |
H2O2 response gene, sensor/responder of H2O2, involved in maintaining embryonic root meristem activity. Expression in rosette leaves is activated by high concentration of boron. |
TAIR Short Description: |
NULL |
TAIR Aliases: |
HRG1 |
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Ontology Term Synonym |
Name: |
regulation of transcription start site selection at RNA polymerase II promoter |
Type: |
synonym |
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GO Term |
Description: |
Any process that modulates the rate, frequency or extent of a process involved in the selection of the specific location within the template strand of an RNA polymerase II promoter for hybridization of the cognate ribonucleotides and formation of first phosphodiester bond within the nascent transcript. |
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Gene |
Length: |
4105
|
Chromosome Location: |
Chr4: 13038360-13042464 |
Organism . Short Name: |
A. thaliana |
TAIR Computational Description: |
FLOWERING WAGENINGEN;(source:Araport11) |
TAIR Curator Summary: |
Encodes a homeodomain-containing transcription factor that controls flowering. FWA is silenced in wild type plants and reverse of the imprinted silencing causes a late flowering phenotype. FWA gene contains two tandem repeats around the transcription start site that are necessary and sufficient for silencing via DNA methylation. |
TAIR Short Description: |
FLOWERING WAGENINGEN |
TAIR Aliases: |
FWA, HDG6 |
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GeneRIF (Gene Reference into Function) |
Annotation: |
During short-term cold exposure, histone H3 acetylation at the transcription start site rapidly increased, implying that it is required for VIN3 induction. |
Organism: |
A. thaliana |
Gene: |
VIN3 |
PubMed Id: |
19825652 |
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SO Term |
Description: |
A gene that has multiple possible transcription start sites. |
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Ontology Term Synonym |
Name: |
encodes alternate transcription start sites |
Type: |
synonym |
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•
|
GO Term |
Description: |
Any process involved in the selection of the specific location within the template strand of a DNA-dependent RNA polymerase promoter for hybridization of the cognate ribonucleotides and formation of first phosphodiester bond within the nascent transcript. |
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Protein Domain |
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Gene |
Length: |
3507
|
Chromosome Location: |
Chr4: 8578741-8582247 |
Organism . Short Name: |
A. thaliana |
TAIR Computational Description: |
folate-sensitive fragile site protein;(source:Araport11) |
TAIR Curator Summary: |
NULL |
TAIR Short Description: |
NULL |
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•
|
Gene |
Length: |
1802
|
Chromosome Location: |
Chr5: 12440488-12442289 |
Organism . Short Name: |
A. thaliana |
TAIR Computational Description: |
START domain protein;(source:Araport11) |
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TAIR Short Description: |
NULL |
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Protein Domain |
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Publication |
First Author: |
Soutourina O |
Title: |
Genome-Wide Transcription Start Site Mapping and Promoter Assignments to a Sigma Factor in the Human Enteropathogen Clostridioides difficile. |
Year: |
2020 |
Journal: |
Front Microbiol |
Volume: |
11 |
Pages: |
1939 |
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•
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Gene |
Length: |
2083
|
Chromosome Location: |
Chr1: 7242896-7244978 |
Organism . Short Name: |
A. thaliana |
TAIR Computational Description: |
multiple chloroplast division site 1;(source:Araport11) |
TAIR Curator Summary: |
Encodes MCD1 (MULTIPLE CHLOROPLAST DIVISION SITE 1). Determines the site of chloroplast division in concert with MinD (AT5G24020). |
TAIR Short Description: |
multiple chloroplast division site 1 |
TAIR Aliases: |
MCD1 |
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GO Term |
Description: |
Binding to a regulatory region composed of the transcription start site and binding sites for transcription factors of the RNA polymerase I transcription machinery. This site is often referred to as the CORE element. In mammalian cells, the CORE element functions in conjunction with the Upstream Control Element (UCE), while in fungi, protozoa, and plants, the CORE element functions without a UCE. |
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Gene |
Length: |
965
|
Chromosome Location: |
Chr2: 18320732-18321696 |
Organism . Short Name: |
A. thaliana |
TAIR Computational Description: |
ecotropic viral integration site protein;(source:Araport11) |
TAIR Curator Summary: |
NULL |
TAIR Short Description: |
NULL |
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SO Term |
Description: |
The base where transcription ends. |
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SO Term |
Description: |
Transcription pause sites are regions of a gene where RNA polymerase may pause during transcription. The functional role of pausing may be to facilitate factor recruitment, RNA folding, and synchronization with translation. Consensus transcription pause site have been observed in E. coli. |
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Ontology Term Synonym |
Name: |
transcription end site |
Type: |
synonym |
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•
|
Ontology Term Synonym |
Name: |
transcription pause site |
Type: |
synonym |
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•
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Protein Domain |
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•
•
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GO Term |
Description: |
Any process that modulates the frequency, rate or extent of the synthesis of either RNA on a template of DNA or DNA on a template of RNA by a mechanism that selects the start site along that template. |
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•
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GO Term |
Description: |
Binding to a GC-box, a DNA motif with the consensus sequence GGGCGG that is located upstream of the start point of eukaryotic transcription units. The GC-box may occur in multiple copies or in either orientation relative to the transcription start site. |
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•
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GO Term |
Description: |
Binding to a sequence of DNA that is part of a core promoter region. The core promoter is composed of the transcription start site and binding sites for the RNA polymerase and the basal transcription machinery. The transcribed region might be described as a gene, cistron, or operon. |
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•
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GO Term |
Description: |
Binding to a sequence of DNA that is a part of a type 1 promoter that controls transcription by RNA polymerase III. Type 1 promoters are found in 5S rRNA genes, downstream of the transcription start site within the sequence of the mature RNA, and require TFIIIA for recognition. |
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Publication |
First Author: |
Kneidl C |
Title: |
An intrinsically bent region upstream of the transcription start site of the rRNA genes of Arabidopsis thaliana interacts with an HMG-related protein. |
Year: |
1995 |
Journal: |
Plant Mol Biol |
Volume: |
27 |
Pages: |
705-13 |
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•
•
•
•
|
GO Term |
Description: |
Binding to a specific upstream regulatory DNA sequence (transcription factor recognition sequence or binding site) located in cis relative to the transcription start site (i.e., on the same strand of DNA) of a gene transcribed by RNA polymerase II. |
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•
•
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Ontology Term Synonym |
Name: |
transcription factor binding site |
Type: |
synonym |
|
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•
•
•
•
|
Ontology Term Synonym |
Name: |
transcriptional start site selection at bacterial-type RNA polymerase promoter |
Type: |
synonym |
|
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•
•
•
•
|
Publication |
First Author: |
SanmartÃn M |
Title: |
MINIYO and transcriptional elongation: lifting the roadblock to differentiation. |
Year: |
2012 |
Journal: |
Transcription |
Volume: |
3 |
Pages: |
25-8 |
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•
•
•
•
|
Publication |
First Author: |
Glatt S |
Title: |
Elongator: transcriptional or translational regulator? |
Year: |
2012 |
Journal: |
Transcription |
Volume: |
3 |
Pages: |
273-6 |
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•
•
•
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Publication |
First Author: |
Deng Z |
Title: |
Yin Yang 1: a multifaceted protein beyond a transcription factor. |
Year: |
2010 |
Journal: |
Transcription |
Volume: |
1 |
Pages: |
81-4 |
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•
•
•
•
|
Publication |
First Author: |
Ni Z |
Title: |
Control of the RNA polymerase II phosphorylation state in promoter regions by CTD interaction domain-containing proteins RPRD1A and RPRD1B. |
Year: |
2011 |
Journal: |
Transcription |
Volume: |
2 |
Pages: |
237-42 |
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•
•
•
•
|
Publication |
First Author: |
Khan A |
Title: |
BEND3 mediates transcriptional repression and heterochromatin organization. |
Year: |
2015 |
Journal: |
Transcription |
Volume: |
6 |
Pages: |
102-5 |
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•
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Publication |
First Author: |
Chau BL |
Title: |
RGG boxes within the TET/FET family of RNA-binding proteins are functionally distinct. |
Year: |
2016 |
Journal: |
Transcription |
Volume: |
7 |
Pages: |
141-51 |
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•
•
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Gene |
Length: |
5137
|
Chromosome Location: |
Chr5: 3679748-3684884 |
Organism . Short Name: |
A. thaliana |
TAIR Computational Description: |
myb domain protein 3r-4;(source:Araport11) |
TAIR Curator Summary: |
Arabidopsis thaliana putative c-myb-like transcription factor MYB3R-4. Functions in powdery mildew induced host endoreduplication at the site of infection. Activates mitotic gene expression, cytokinin response. |
TAIR Short Description: |
myb domain protein 3r-4 |
TAIR Aliases: |
AtMYB3R4, MYB3R-4 |
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•
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SO Term |
Description: |
A region of a nucleotide molecule that binds a Transcription Factor or Transcription Factor complex [GO:0005667]. |
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•
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GeneRIF (Gene Reference into Function) |
Annotation: |
Deletion of the START domain from Arabidopsis Glabra2, a representative HD-Zip transcription factor, results in a complete loss-of-function phenotype. The mammalian START domain from StAR can functionally replace the HD-Zip-derived START domain. |
Organism: |
A. thaliana |
Gene: |
GL2 |
PubMed Id: |
25159688 |
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|
Gene |
Length: |
2469
|
Chromosome Location: |
Chr5: 2277813-2280281 |
Organism . Short Name: |
A. thaliana |
TAIR Computational Description: |
START (StAR-related lipid-transfer) lipid-binding domain-containing protein;(source:Araport11) |
TAIR Curator Summary: |
NULL |
TAIR Short Description: |
START (StAR-related lipid-transfer) lipid-binding domain |
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•
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•
|
Gene |
Length: |
2142
|
Chromosome Location: |
Chr4: 13525031-13527172 |
Organism . Short Name: |
A. thaliana |
TAIR Computational Description: |
START (StAR-related lipid-transfer) lipid-binding domain-containing protein;(source:Araport11) |
TAIR Curator Summary: |
NULL |
TAIR Short Description: |
START (StAR-related lipid-transfer) lipid-binding domain |
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Gene |
Length: |
1447
|
Chromosome Location: |
Chr3: 19758157-19759603 |
Organism . Short Name: |
A. thaliana |
TAIR Computational Description: |
cytochrome P450, family 71, subfamily B, polypeptide 30 pseudogene;(source:Araport11) |
TAIR Curator Summary: |
missing N-term 80 AA not found between end of 71B5 and start of this sequence probably a pseudogene, from http://drnelson.utmem.edu/biblioD.html |
TAIR Short Description: |
cytochrome P450, family 71, subfamily B, polypeptide 30 pseudogene |
TAIR Aliases: |
CYP71B30P |
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Gene |
Length: |
2297
|
Chromosome Location: |
Chr2: 19404802-19407098 |
Organism . Short Name: |
A. thaliana |
TAIR Computational Description: |
WRKY DNA-binding protein 23;(source:Araport11) |
TAIR Curator Summary: |
Encodes a member of WRKY Transcription Factor; Group I. Involved in nematode feeding site establishment and auxin mediated PIN polar localization in roots. Expression is induced by auxin. |
TAIR Short Description: |
WRKY DNA-binding protein 23 |
TAIR Aliases: |
ATWRKY23, WRKY23 |
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•
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Gene |
Length: |
5289
|
Chromosome Location: |
Chr2: 11109003-11114291 |
Organism . Short Name: |
A. thaliana |
TAIR Computational Description: |
glycine decarboxylase P-protein 2;(source:Araport11) |
TAIR Curator Summary: |
P-subunit of glycine decarboxylase.The P subunit is the site of glycine binding. |
TAIR Short Description: |
glycine decarboxylase P-protein 2 |
TAIR Aliases: |
AtGLDP2, GLDP2 |
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•
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Publication |
First Author: |
Duchêne M |
Title: |
Sequence and transcriptional start site of the Pseudomonas aeruginosa outer membrane porin protein F gene. |
Year: |
1988 |
Journal: |
J Bacteriol |
Volume: |
170 |
Pages: |
155-62 |
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•
•
|
SO Term |
Description: |
A region defined by a cluster of experimentally determined transcription starting sites. |
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•
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GO Term |
Description: |
An epigenetic gene regulation mechanism that negatively regulates gene expression by methylation of cytosine residues in chromosomal CpG islands. CpG islands are genomic regions that contain a high frequency of the CG dinucleotide and are often associated with the transcription start site of genes. |
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•
|
GO Term |
Description: |
An epigenetic gene regulation mechanism that positively regulates gene expression by demethylation of cytosine residues in chromosomal CpG islands. CpG islands are genomic regions that contain a high frequency of the CG dinucleotide and are often associated with the transcription start site of genes. |
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•
•
•
|
Gene |
Length: |
1787
|
Chromosome Location: |
Chr2: 9248525-9250311 |
Organism . Short Name: |
A. thaliana |
TAIR Computational Description: |
Adenine nucleotide alpha hydrolases-like superfamily protein;(source:Araport11) |
TAIR Curator Summary: |
Encodes gene that is induced in response to desiccation; mRNA expression is seen 10 and 24 hrs after start of desiccation treatment. |
TAIR Short Description: |
Adenine nucleotide alpha hydrolases-like superfamily protein |
TAIR Aliases: |
RD2 |
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Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
282
|
|
•
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•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
278
|
|
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•
|
Ontology Term Synonym |
Name: |
transcription factor binding site amplification |
Type: |
synonym |
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•
•
|
Ontology Term Synonym |
Name: |
transcription factor binding site ablation |
Type: |
synonym |
|
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•
|
Ontology Term Synonym |
Name: |
transcription factor binding site translocation |
Type: |
synonym |
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•
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Ontology Term Synonym |
Name: |
transcription factor binding site fusion |
Type: |
synonym |
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•
•
|
Ontology Term Synonym |
Name: |
general transcription factor binding site |
Type: |
synonym |
|
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•
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•
|
Ontology Term Synonym |
Name: |
specific transcription factor binding site |
Type: |
synonym |
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•
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Ontology Term Synonym |
Name: |
transcription termination site DNA binding |
Type: |
synonym |
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•
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Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
395
|
|
•
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•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
192
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
402
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
598
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
423
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
433
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
465
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
541
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
778
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
242
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
449
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
385
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
403
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
596
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
426
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
433
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
465
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
541
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
260
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
119
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
778
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
778
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
449
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
546
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
433
|
|
•
•
•
•
•
|
Protein |
Organism . Name: |
Arabidopsis thaliana |
Length: |
423
|
|
•
•
•
•
•
|
Protein Domain |
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•
•
•
•
•
|
Protein Domain |
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•
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Ontology Term Synonym |
Name: |
coding start |
Type: |
synonym |
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•
•
•
|
Ontology Term Synonym |
Name: |
translation start |
Type: |
synonym |
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•
•
•
•
|
Ontology Term Synonym |
Name: |
start codon |
Type: |
synonym |
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•
•
•
•
|
Publication |
First Author: |
Chen C |
Title: |
RNA polymerase II-independent recruitment of SPT6L at transcription start sites in Arabidopsis. |
Year: |
2019 |
Journal: |
Nucleic Acids Res |
Volume: |
47 |
Pages: |
6714-6725 |
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•
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SO Term |
Description: |
A start codon that is not the usual AUG sequence. |
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•
•
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